Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / matthiaskoenig/sbmlutils issues and pull requests

#449 - Update examples and tests to handle ultra scrict unit testing

Issue - State: open - Opened by matthiaskoenig 3 months ago - 1 comment
Labels: bug

#448 - Fix failing docs

Issue - State: open - Opened by matthiaskoenig 3 months ago
Labels: documentation

#447 - Update npm dependencies and packages for sbml4humans

Issue - State: open - Opened by matthiaskoenig 3 months ago
Labels: sbml4humans

#446 - additional sbml4humans examples

Issue - State: closed - Opened by matthiaskoenig 3 months ago
Labels: sbml4humans

#445 - Replace py2cytoscape with py4cytoscape

Issue - State: closed - Opened by matthiaskoenig 4 months ago
Labels: feature

#444 - Fix model_config warning pydantic

Issue - State: closed - Opened by matthiaskoenig 4 months ago

#443 - Parser formula definition uses `ast` before assignment.

Issue - State: closed - Opened by castagninojose 4 months ago - 1 comment
Labels: bug

#442 - sbml4humans api unresponsive

Issue - State: closed - Opened by matthiaskoenig 4 months ago - 3 comments
Labels: sbml4humans

#441 - Serialization to diffrax

Issue - State: open - Opened by matthiaskoenig 7 months ago - 3 comments
Labels: odefac

#440 - Issues in ODE serialization with AssignmentRules on species

Issue - State: closed - Opened by matthiaskoenig 7 months ago
Labels: odefac

#439 - Support python 3.12

Issue - State: closed - Opened by matthiaskoenig 10 months ago

#438 - InitialAssignments not supported in code generator

Issue - State: open - Opened by matthiaskoenig 10 months ago
Labels: odefac

#437 - Add names to the generated ode systems in odefac

Issue - State: closed - Opened by matthiaskoenig 10 months ago
Labels: odefac

#436 - Create sbml4humans in separate repository

Issue - State: open - Opened by matthiaskoenig about 1 year ago
Labels: sbml4humans

#435 - Support additional units such as pascal or watt

Issue - State: closed - Opened by matthiaskoenig about 1 year ago

#434 - pydantic error

Issue - State: closed - Opened by shoepfl over 1 year ago - 4 comments

#433 - Events do not list assignments in sbml4humans

Issue - State: open - Opened by matthiaskoenig over 1 year ago
Labels: sbml4humans

#432 - Not parsing character codes in ontology links?

Issue - State: closed - Opened by jpsluka almost 2 years ago - 5 comments
Labels: bug, sbml4humans

#431 - Fix #430, support for python 3.11

Pull Request - State: closed - Opened by matthiaskoenig almost 2 years ago

#430 - Python 3.11 support

Issue - State: closed - Opened by matthiaskoenig about 2 years ago

#429 - Bring interpolation back with documentation

Issue - State: closed - Opened by matthiaskoenig over 2 years ago - 1 comment

#428 - Implement support for spatial models

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: feature, spacial

#427 - Rules

Pull Request - State: closed - Opened by matthiaskoenig over 2 years ago - 1 comment

#426 - Improve access to objects via sid and metaid

Issue - State: open - Opened by matthiaskoenig over 2 years ago

#425 - Improve printing of objects

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#424 - Do not set default timestamps

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: bug

#423 - UncertSpan and UncertParameter must be SBase

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: distrib

#422 - Better handling of packages

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: core

#421 - Support fbc version 2 & version3

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: fbc

#419 - Ensure sbmlinfo is working on model import

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: sbml4humans

#418 - Simplify model creation options

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#417 - Support merging of notes in different formats

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: bug

#416 - Support ModelHistory on SBase

Issue - State: closed - Opened by matthiaskoenig over 2 years ago - 1 comment
Labels: bug, feature

#415 - Merge SBMLInfo and model parser (extend/update the JSON for report)

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: feature

#414 - How to include scientific e-notation (e.g 2 * 10^-5) for parameter values?

Issue - State: closed - Opened by alifarhat40 over 2 years ago - 1 comment

#413 - Support for variable stoichiometries

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#412 - Refactor equation handling

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: modelcreator

#411 - Support antimony model import/export

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: feature

#410 - Validation warnings/errors should be available via sbml4humans report

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: feature, report

#409 - Support for Algebraic rules

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: modelcreator, core

#408 - Document model creation with examples

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: documentation

#407 - Changes for 0.7.6 release

Pull Request - State: closed - Opened by matthiaskoenig over 2 years ago

#406 - Distinguish InitialAssignment from AssignmentRule in sbml4humans report

Issue - State: open - Opened by matthiaskoenig over 2 years ago
Labels: sbml4humans

#405 - Issue warning if object with `constant=False` has no assignment via rule/event/...

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: wontfix, sbml4humans

#404 - Changes for 0.7.5

Pull Request - State: closed - Opened by matthiaskoenig over 2 years ago

#403 - Twitter action for release

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#402 - Update pymetadata>=0.2.9

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#401 - Fix failing tests

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#400 - Replace format expressions with fstrings

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#399 - Refactor test directory

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#398 - SBML4Humans report is offline

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: bug

#397 - Merging release 0.7.2

Pull Request - State: closed - Opened by matthiaskoenig over 2 years ago

#396 - Drop libroadrunner dependency (move to sbmlsim)

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#395 - Rename master to main branch

Issue - State: closed - Opened by matthiaskoenig over 2 years ago

#394 - Priority math on events not supported

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: bug

#393 - Events not displayed in report

Issue - State: closed - Opened by matthiaskoenig over 2 years ago
Labels: report

#392 - Viewing differential equations in SBML report (ODE viewer)

Issue - State: open - Opened by DeepaMahm over 2 years ago - 6 comments
Labels: feature, sbml4humans

#390 - Update to latest libsbml release

Issue - State: closed - Opened by matthiaskoenig almost 3 years ago

#389 - Python 3.10 support

Issue - State: closed - Opened by matthiaskoenig almost 3 years ago - 1 comment

#388 - Drop python 3.7 support (end of lifetime)

Issue - State: closed - Opened by matthiaskoenig almost 3 years ago

#387 - Creators order in SBML is changed randomly

Issue - State: closed - Opened by matthiaskoenig almost 3 years ago - 2 comments

#386 - Drag and Drop non-functional

Issue - State: closed - Opened by Lepujolh almost 3 years ago - 1 comment

#385 - Feature to download component wise JSON and XML

Issue - State: closed - Opened by sankha555 about 3 years ago - 1 comment

#383 - Dynamic network visualization for SBML4Humans

Issue - State: open - Opened by matthiaskoenig about 3 years ago
Labels: feature

#382 - Add report tests for all curated biomodels

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: testing, report

#381 - Error importing SBML file BIOMD0000000507_url.xml

Issue - State: closed - Opened by ajfedorec about 3 years ago - 2 comments
Labels: report

#380 - Forward www.sbml4humans.de -> sbml4humans.de

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: report

#379 - Better boolean true/false checks in sbml4humans

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#378 - Provide annotation functionality in the frontend (sbml4humans)

Issue - State: closed - Opened by matthiaskoenig about 3 years ago - 1 comment
Labels: feature, sbml4humans, metadata

#377 - File upload bug report (missing tmp file)

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#376 - Bugfixes sbml4humans report

Pull Request - State: closed - Opened by matthiaskoenig about 3 years ago - 1 comment

#375 - Display additional files in COMBINE archive

Issue - State: open - Opened by matthiaskoenig about 3 years ago
Labels: feature, sbml4humans

#374 - Files/folders must be ordered alphabetically in tree

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#373 - Omex frontend

Pull Request - State: closed - Opened by matthiaskoenig about 3 years ago - 1 comment

#372 - Omex selection box is cut in report

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#371 - Omex frontend

Pull Request - State: closed - Opened by sankha555 about 3 years ago - 1 comment

#369 - RateRule math not displayed in detailed view

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug

#368 - Cleanup of ports and slotProps in tables

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#367 - Search bar state has to be specific for report

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug

#366 - Navigation menu not displayed in deployment

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report, deployment

#365 - lower and upperFluxBound rendered incorrectly in report

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#364 - Better rendering of True/False/NA symbols in report

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#363 - derivedUnits incorrectly rendered on Reaction

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#362 - Smaller unit sizes in detail view

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug

#361 - Improve report layout (Splitter & SideMenu)

Issue - State: closed - Opened by matthiaskoenig about 3 years ago

#360 - Move CSS styling to frontend for reports

Issue - State: closed - Opened by matthiaskoenig about 3 years ago - 1 comment
Labels: feature, report

#359 - Latest installation does not work on Mac

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug

#358 - Examples

Pull Request - State: closed - Opened by matthiaskoenig about 3 years ago

#357 - Provide examples via sbml4humans

Issue - State: closed - Opened by matthiaskoenig about 3 years ago

#356 - Models with NaN values fail to render report

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#355 - Rendering of display units and derived units with pints

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: feature, report

#354 - Rendering issue of RateRule equations in report

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug, report

#353 - sbml4humans deployment not working (api registration)

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: report, deployment

#352 - Feature units rendering

Pull Request - State: closed - Opened by matthiaskoenig about 3 years ago - 1 comment

#351 - Create report JSON in memory

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: report

#349 - Better error message if UnitDefinitions are not created

Issue - State: closed - Opened by matthiaskoenig about 3 years ago

#348 - Report for `dex_liver` not rendered

Issue - State: closed - Opened by matthiaskoenig about 3 years ago
Labels: bug